DGEobj: Differential Gene Expression (DGE) Analysis Results Data Object
Provides a flexible container to manage and annotate Differential Gene
Expression (DGE) analysis results (Smythe et. al (2015) <doi:10.1093/nar/gkv007>).
The DGEobj has data slots for row (gene), col (samples), assays (matrix n-rows
by m-samples dimensions) and metadata (not keyed to row, col, or assays).
A set of accessory functions to deposit, query and retrieve subsets of a data
workflow has been provided. Attributes are used to capture metadata such as
species and gene model, including reproducibility information such that a 3rd
party can access a DGEobj history to see how each data object was created or
modified. Since the DGEobj is customizable and extensible it is not limited
to RNA-seq analysis types of workflows – it can accommodate nearly any data
analysis workflow that starts from a matrix of assays (rows) by samples (columns).
| Version: |
1.1.2 |
| Depends: |
R (≥ 3.5.0) |
| Imports: |
assertthat, magrittr, stringr, utils |
| Suggests: |
biomaRt, conflicted, dplyr, edgeR, GenomicRanges, glue, knitr, rmarkdown, testthat |
| Published: |
2022-05-16 |
| DOI: |
10.32614/CRAN.package.DGEobj |
| Author: |
John Thompson [aut],
Connie Brett [aut, cre],
Isaac Neuhaus [aut],
Ryan Thompson [aut] |
| Maintainer: |
Connie Brett <connie at aggregate-genius.com> |
| License: |
GPL-3 |
| NeedsCompilation: |
no |
| Language: |
en-US |
| Materials: |
README, NEWS |
| In views: |
Omics |
| CRAN checks: |
DGEobj results |
Documentation:
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